Pathogens: Difference between revisions

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The ICD10 ~~buglist~~ contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms.

The [[ICD10 Diagnosis List]] contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms. The entire list can be found in category and subcategories:

Pathogens are coded as their own diagnosis codes:

They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Infections in ICD10]] for more info.

They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Template:ICD10 Guideline Infection]], [[Infections in ICD10]] for more info.

~~== Culture reports ==~~

Information about pathogens can be found in the patient's chart's [[Lab and culture reports]]; see that page for specific use instructions.

~~see~~ [[Lab and culture reports]]

== ~~Wastebasket codes~~ ==

== NOS pathogens ==

~~If you don~~'t ~~see~~ the specific ~~organism~~ in ~~your case~~, then ~~there~~ are ~~wastebasket codes~~:

*In each of those categories there are a number of specific bugs with their own codes (e.g. B95.3 is Strep pneumoniae)

*[[Bacteria, NOS]]

*But obviously we can't list every bug of any type, so for each of those categories there is also a "wastebasket" code for "NOS". For example, if the bug is a specific bacteria but it's not in our list, then use [[Bacteria, NOS]], etc. These are:

*[[Virus, NOS]]

**[[Bacteria, NOS]]

*[[Fungus or yeast, NOS]]

**[[Virus, NOS]]

*[[Nontuberculous mycobacteria]]

**[[Fungus or yeast, NOS]]

*[[~~Infectious disease NOS OR for buglist~~ organism NOS]] ~~(when you don~~'~~t have any idea even what type of~~ bug it ~~is)~~

**[[Nontuberculous mycobacteria]]

* [[~~Not an Infection (ICD10 pathogen alternative)~~]] ~~- included for now~~, ~~not sure yet if~~ it ~~will be used to cross check pathogens {{ICD10|needs review}}~~.

**[[Other type of infectious organism, NOS]]

=== NOS vs Unknown in the context of pathogens ===

*We must distinguish '''NOS''' from '''unknown'''.

**''NOS'' means that we do know the bug, but it's not in our list of specific pathogens

**''[[Infectious organism, unknown]]'' means we assume that there IS in fact a pathogen, but we have no idea about it's actual identity.

=== Special Codes ===

* {{ICD10~~|needs review}} We used to have a code~~ [[~~No Culture Sent or Resulted~~]] ~~; if we want cross-checks requiring this to be filled in we will need some sort of counterpart to that. Ttenbergen 20~~:03, ~~2017 December 3 (CST)~~

* [[Not an Infection (ICD10 pathogen alternative)]] - included for [[cross check]]s when entering [[:Category:Potential infection]]s

* [[Infectious organism, unknown]] - eg for negative culture

== {{~~CCMDB~~ Data Integrity ~~Checks|needs review}} ==~~

~~See [[~~Check ~~Infections must have pathogens]] {{ICD10|needs review~~}}

== Related Articles ==

[[Category: ICD10]]

[[Category:ICD10]]

~~[[Category: Infection~~]]

[[Category:Pathogens| *]]

[[Category: Pathogens|*]]

[[Category:Infectious disease| *]]

~~----~~

~~= Old coding =~~

~~The '''pathogens''' are a list of possible entries that make up the sub-code for diagnoses categorized as [[:Category: Infection | Infection]].~~

*Refer to: [[UPL]] - [[Universal Pathogen List]], for a list of "bugs" we track.

*The pathogen subcodes are drawn from the '''[[table S_Pathogens]]''' table in [[CCMDB.mdb]].

~~== Culture reports (old) ==~~

~~Follow up all culture reports '''up to 5 days after discharge from unit'''. If pathogen is still not available then, enter [[Unknown Pathogen]].~~

~~=== Special Codes ===~~

*[[No Culture Sent or Resulted]]

*[[Unknown Pathogen]]

Could someone please fill in specifics about how or when these are to be used? Specifically, if we know specific bugs, are there any that should be coded implicitly even if there are others (ie precedence rules)?

~~== Coding when antibiotics are given but no cultures ==~~

~~If there is evidence of an ongoing infection, even if no further culture code the previous pathogen.~~

~~If no culture is sent then we choose the subcode [[No Culture Sent or Resulted]]~~

~~[[Category: UPL~~]]

[[Category: ~~Infection~~|*]]

~~[[Category: Diagnosis Coding~~]]

@@ Line 1: / Line 1: @@
-The ICD10 buglist contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms.
+The [[ICD10 Diagnosis List]] contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms. The entire list can be found in category and subcategories:
+{{subcat collapsible|supercategory = Pathogens}}
 Pathogens are coded as their own diagnosis codes:
 {{ListICD10Category | categoryName = Pathogens}}
-They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Infections in ICD10]] for more info.
+They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Template:ICD10 Guideline Infection]], [[Infections in ICD10]] for more info.
-== Culture reports ==
+Information about pathogens can be found in the patient's chart's [[Lab and culture reports]]; see that page for specific use instructions.
-see [[Lab and culture reports]]
-== Wastebasket codes ==
+== NOS pathogens ==
-If you don't see the specific organism in your case, then there are wastebasket codes:
+*In each of those categories there are a number of specific bugs with their own codes (e.g. B95.3 is Strep pneumoniae)
-*[[Bacteria, NOS]]
+*But obviously we can't list every bug of any type, so for each of those categories there is also a "wastebasket" code for "NOS".  For example, if the bug is a specific bacteria but it's not in our list, then use [[Bacteria, NOS]], etc.  These are:
-*[[Virus, NOS]]
+**[[Bacteria, NOS]]
-*[[Fungus or yeast, NOS]]
+**[[Virus, NOS]]
-*[[Nontuberculous mycobacteria]]
+**[[Fungus or yeast, NOS]]
-*[[Infectious disease NOS OR for buglist organism NOS]] (when you don't have any idea even what type of bug it is)
+**[[Nontuberculous mycobacteria]]
-* [[Not an Infection (ICD10 pathogen alternative)]] - included for now, not sure yet if it will be used to cross check pathogens {{ICD10|needs review}}.
+**[[Other type of infectious organism, NOS]]
+=== NOS vs Unknown in the context of pathogens  ===
+*We must distinguish '''NOS''' from '''unknown'''.
+**''NOS'' means that we do know the bug, but it's not in our list of specific pathogens
+**''[[Infectious organism, unknown]]'' means we assume that there IS in fact a pathogen, but we have no idea about it's actual identity.
 === Special Codes ===
-* {{ICD10|needs review}} We used to have a code [[No Culture Sent or Resulted]] ; if we want cross-checks requiring this to be filled in we will need some sort of counterpart to that. Ttenbergen 20:03, 2017 December 3 (CST)
+* [[Not an Infection (ICD10 pathogen alternative)]] - included for [[cross check]]s when entering [[:Category:Potential infection]]s
+* [[Infectious organism, unknown]] - eg for negative culture
-== {{CCMDB Data Integrity Checks|needs review}} ==
+{{Data Integrity Check List}}
-See [[Check Infections must have pathogens]] {{ICD10|needs review}}
 == Related Articles ==
 {{Related Articles}}
-[[Category: ICD10]]
+[[Category:ICD10]]
-[[Category: Infection]]
+[[Category:Pathogens| *]]
-[[Category: Pathogens|*]]
+[[Category:Infectious disease| *]]
-----
-= Old coding =
-The '''pathogens''' are a list of possible entries that make up the sub-code for diagnoses categorized as [[:Category: Infection | Infection]].
-*Refer to: [[UPL]] - [[Universal Pathogen List]], for a list of "bugs" we track.
-*The pathogen subcodes are drawn from the '''[[table S_Pathogens]]''' table in [[CCMDB.mdb]].
-== Culture reports (old) ==
-Follow up all culture reports '''up to 5 days after discharge from unit'''. If pathogen is still not available then, enter [[Unknown Pathogen]].
-=== Special Codes ===
-*[[No Culture Sent or Resulted]]
-*[[Unknown Pathogen]]
-Could someone please fill in specifics about how or when these are to be used? Specifically, if we know specific bugs, are there any that should be coded implicitly even if there are others (ie precedence rules)?
-== Coding when antibiotics are given but no cultures ==
-If there is evidence of an ongoing infection, even if no further culture code the previous pathogen.
-If no culture is sent then we choose the subcode [[No Culture Sent or Resulted]]
-[[Category: UPL]]
-[[Category: Infection|*]]
-[[Category: Diagnosis Coding]]